Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F1 I1 R1
|
66 |
46.7 |
5280542 |
98.1% |
5180211 |
47.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
2,753,670 |
A→G |
W20R (TGG→CGG) |
ypfG ← |
DUF1176 domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,753,670 | 0 | A | G | 100.0%
| 114.3
/ NA
| 30 | W20R (TGG→CGG) | ypfG | DUF1176 domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (11/19); total (11/19) |
GTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAA > NC_017635/2753627‑2753714
|
gTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCgcac > 1:707577/1‑47 (MQ=255)
tGACCTGCCAGTCGGAAAACGCCCGTTGCGATGGTGCCGCCCGCAcc > 1:1969069/1‑47 (MQ=38)
ccTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAg < 2:2491505/48‑1 (MQ=255)
ccTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAg < 1:2226892/48‑1 (MQ=255)
cTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGa > 2:1664297/1‑48 (MQ=255)
ccAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGAc < 1:1415129/46‑1 (MQ=255)
aGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCg < 2:15728/48‑1 (MQ=255)
cGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGc > 2:1232883/1‑47 (MQ=255)
ggAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGca < 1:1916832/47‑1 (MQ=255)
gAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGcaac < 1:17877/48‑1 (MQ=255)
gAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGcaac < 1:27966/48‑1 (MQ=255)
aaaCGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGcaaca > 2:2269249/1‑47 (MQ=255)
aaCGCCCGTTGCGCTGGCGCCGCCCGCACCAAAGACGTCGGcaaca > 2:2624784/1‑46 (MQ=39)
aCGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAg < 1:402658/48‑1 (MQ=255)
ccGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGa > 2:1951618/1‑47 (MQ=255)
cGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGaaa < 1:740546/48‑1 (MQ=255)
ttGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGaaaaa < 1:2590622/48‑1 (MQ=255)
tGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGaaaaa > 2:92621/1‑47 (MQ=255)
tGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGaaaaa > 2:216359/1‑47 (MQ=255)
gcgcTGGTGCCGCCCGCTCCAAAGACGTCGGCAACAAAGCGaaaaaa < 1:1991767/47‑1 (MQ=255)
cgcTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGaaaaaa > 1:1579432/1‑46 (MQ=255)
tGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAg > 2:2438194/1‑48 (MQ=255)
tGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAg < 1:1345633/48‑1 (MQ=255)
ccgcccgcACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAgg < 1:2275928/47‑1 (MQ=255)
ccgcccgcACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAgg < 2:464892/47‑1 (MQ=255)
cgccCGCACCAAAGACGTCGGCAACAAAGCG‑AAAAAAAGAGAAGGaaa < 1:1402725/48‑1 (MQ=255)
gccCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGaaa < 1:2529689/48‑1 (MQ=255)
gccCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGaaa < 2:1397557/48‑1 (MQ=255)
gccCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGaaa < 1:157500/48‑1 (MQ=255)
gccCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGaaa < 1:1567168/48‑1 (MQ=255)
gccCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGaaa < 2:369332/48‑1 (MQ=255)
gccCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGaa > 1:2252120/1‑47 (MQ=255)
cccGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGaaaa < 2:2292857/48‑1 (MQ=255)
|
GTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAA > NC_017635/2753627‑2753714
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGAT > NC_017635/2753625‑2753720
|
AGGTTCCCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCA < M01420:84:000000000‑ABVEH:1:1110:26680:21776/51‑1 (MQ=60)
AGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACC > M01420:84:000000000‑ABVEH:1:1107:24087:4983/1‑50 (MQ=60)
GGTGACCTGCCAGTCGGAAAACGCCCGTTGCGATGGTGCCGCCCGCACCA > M01420:84:000000000‑ABVEH:1:2103:27161:21723/1‑50 (MQ=60)
CCCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGAC < M01420:84:000000000‑ABVEH:1:2106:9613:3244/51‑1 (MQ=60)
GCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGT < M01420:84:000000000‑ABVEH:1:1113:10944:4267/49‑1 (MQ=60)
CGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAAC < M01420:84:000000000‑ABVEH:1:2103:23283:11549/50‑1 (MQ=60)
GGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAA < M01420:84:000000000‑ABVEH:1:1101:8834:7240/51‑1 (MQ=60)
GGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAA < M01420:84:000000000‑ABVEH:1:1101:22743:9447/51‑1 (MQ=60)
AACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCG < M01420:84:000000000‑ABVEH:1:1104:25659:14562/51‑1 (MQ=60)
CCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAA < M01420:84:000000000‑ABVEH:1:1107:27012:12150/51‑1 (MQ=60)
GTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAA < M01420:84:000000000‑ABVEH:1:2109:16126:6106/51‑1 (MQ=60)
TGCGCTGGTGCCGCCCGCTCCAAAGACGTCGGCAACAAAGCGAAAAAAAA < M01420:84:000000000‑ABVEH:1:2103:21458:27864/50‑1 (MQ=60)
TGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAA > M01420:84:000000000‑ABVEH:1:1114:23410:13672/1‑49 (MQ=60)
GCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAG < M01420:84:000000000‑ABVEH:1:2112:17906:24196/50‑1 (MQ=60)
GCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAG > M01420:84:000000000‑ABVEH:1:2112:22773:22117/1‑48 (MQ=60)
GTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGA < M01420:84:000000000‑ABVEH:1:1112:10649:14731/51‑1 (MQ=60)
GCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAA < M01420:84:000000000‑ABVEH:1:2106:20964:14182/50‑1 (MQ=60)
CCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAA > M01420:84:000000000‑ABVEH:1:2106:13070:9555/1‑50 (MQ=60)
CCGCCCGCACCAAAGACGTCGGCAACAAAGCG‑AAAAAAAGAGAAGGAAAAT < M01420:84:000000000‑ABVEH:1:1112:19907:26697/51‑1 (MQ=57)
CGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAAT < M01420:84:000000000‑ABVEH:1:1114:10491:11351/51‑1 (MQ=60)
CGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAAT < M01420:84:000000000‑ABVEH:1:2108:24228:17519/51‑1 (MQ=60)
CGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAAT < M01420:84:000000000‑ABVEH:1:1102:20158:12154/51‑1 (MQ=60)
CCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCG < M01420:84:000000000‑ABVEH:1:2103:27395:8273/51‑1 (MQ=60)
GCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGAT < M01420:84:000000000‑ABVEH:1:2113:25502:23933/51‑1 (MQ=60)
|
AGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGAT > NC_017635/2753625‑2753720
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
